Interactive Index
Every simulator, game, quiz and interactive figure in the course46 interactive pieces are linked from the fourteen week pages, scattered across a dozen directories of this site. This page gathers all of them in one place, with 12 more that are relevant but that no week page currently links. Several appear in more than one week — the FID demo turns up in Weeks 02, 03 and 11 — so the per-week counts below add up to more than 46. Search filters on title, description and week. Nothing here needs an install or a login; everything runs in the browser.
Week 01: Introduction & History4
-
Neuroimaging Perspectives: Clinical vs. Research
Explore how clinical radiologists and neuroscientists interpret brain scans differently: qualitative PACS workstations and single-patient pathology vs. quantitative group-level statistics and automated volumetric analysis in research.
-
Diagnostic Test & Confusion Matrix Calculator
Manipulate sensitivity, specificity, and disease prevalence to visualize true/false positives and confusion matrices, demonstrating how pre-test probability impacts clinical imaging biomarkers.
-
Neuroimaging Dichotomous Key
Step through an interactive dichotomous key to differentiate neuroimaging modalities (CT, SPECT, PET, DSA, EEG, MEG, fMRI, structural MRI, fNIRS, and TCD) based on ionizing vs. non-ionizing radiation, tracers, electromagnetic sensors, and physical contrasts.
-
Diagnostic Incoming Self-Assessment Quiz
A quick pre-assessment quiz covering core neuroimaging modalities, signal sources, and spatial/temporal tradeoffs to evaluate your baseline knowledge.
Week 02: Physical Principles of MRI8
-
Free Induction Decay (FID) & Spin Relaxation
Directly connects the 3D time evolution of precessing and dephasing proton moments to the voltage signal induced in an RF receiver coil via Faraday's Law. Features continuous longitudinal memory across pulses.
-
Gradient Encoding Visualizer
Observe how linear magnetic field gradients make precession frequencies position-dependent, demonstrating slice selection (Gz), phase encoding (Gy), and frequency encoding readout (Gx).
-
Pulse Sequence Timing Diagram
A dynamic pulse sequence diagram. Adjust TE to see the 180° refocusing pulse and echo move together; adjust TR to visualize scanner repetition intervals and phase-encode step increments.
-
k-space Explorer
Vary the fraction of k-space kept to see how central k-space governs coarse contrast while peripheral k-space yields sharp edges, demonstrating Gibbs / truncation ringing.
-
3D NMR Relaxation & Proton Dynamics
Explore Bloch equation proton spin dynamics in 3D. Manipulate static field strength ($B_0$), $T_1$ recovery, and $T_2$ decay in real-time. Trigger 90° and 180° RF excitation pulses to watch nutation, precession, and magnetization vector evolution.
-
Interactive 2D FFT & K-Space Simulator
Draw spatial patterns or test presets (sine gratings, checkerboards, Gaussian blobs, edge filters) to see the instantaneous 2D Fourier transform magnitude spectrum with DC centering and log scaling.
-
Spinning Vector Sum Simulator
Adjust rotation frequencies and vector amplitudes to see how multiple precessing magnetic moments combine constructively or destructively to produce the net detected MR signal.
-
MRI Safety Course & Force Simulator
Examine the spatial fringe field of superconducting magnets with an interactive magnetic attraction force slider ($F \propto B^2$), review projectile safety, and complete the MRI Safety Certification Quiz.
Week 03: Structural MRI & Contrast9
-
Free Induction Decay (FID) & Spin Relaxation
Directly connects the 3D time evolution of precessing and dephasing proton moments to the voltage signal induced in an RF receiver coil via Faraday's Law. Features continuous longitudinal memory across pulses.
-
Pulse Sequence Timing Diagram
A dynamic pulse sequence diagram. Adjust TE to see the 180° refocusing pulse and echo move together; adjust TR to visualize scanner repetition intervals and phase-encode step increments.
-
EPI Geometric Distortion & Susceptibility Dropout
Examine macroscopic magnetic susceptibility gradients at air-tissue interfaces (paranasal sinuses) that cause phase-encoding distortion and intra-voxel dephasing signal blackout.
-
TR/TE Contrast Explorer
Manipulate TR and TE sliders to see real-time spin-echo signal calculations across four tissue types (White Matter, Gray Matter, CSF, and Fat), dynamically identifying T1-weighted, T2-weighted, and PD-weighted regimes.
-
MRI Artifact Simulator
Introduce deliberate k-space and spatial distortions to inspect Chemical Shift (fat-water frequency displacement), Aliasing / Wrap-around (reduced FOV), and Motion Ghosting (phase-encode modulation) with variable severity.
-
Spin Echo Dephasing & Rephasing I & II
Watch an 8x8 array of magnetic moments dephase due to microscopic field inhomogeneities ($T_2^*$), then apply a 180° RF pulse to reverse their relative phase evolution and observe spin echo refocusing.
-
Ernst Angle Calculator
Calculate the optimal excitation flip angle $\alpha_E = \arccos(e^{-TR/T_1})$ to maximize steady-state signal amplitude for gradient echo sequences at short repetition times.
-
Ferroquant: Iron & Hemorrhage Susceptibility Contrast
Understand how paramagnetic and diamagnetic iron states (oxyhemoglobin, deoxyhemoglobin, methemoglobin, hemosiderin) alter local magnetic fields and shorten $T_2^*$, with a case study on subdural hematoma aging.
-
MRI Modality Card Game
Reinforce knowledge of MRI magnet types, tissue contrasts (T1, T2, FLAIR, DWI), relaxation physics, and clinical neuro applications.
Week 04: Functional MRI (fMRI)6
-
EPI Geometric Distortion & Susceptibility Dropout
Examine macroscopic magnetic susceptibility gradients at air-tissue interfaces (paranasal sinuses) that cause phase-encoding distortion and intra-voxel dephasing signal blackout.
-
fMRI GLM & Convolution Studio
Connect neural events to the BOLD time series by convolving stimulus boxcars with the canonical double-gamma HRF, observing how metabolic delays shape voxel signals.
-
Interactive BOLD Signal (HRF) Simulator
Trigger a 1-second sensory stimulus to contrast instantaneous electrical neural spiking with the sluggish BOLD Hemodynamic Response Function (HRF) peaking 5–6 seconds later, accompanied by a dynamic cortical activation display.
-
Local Field Potentials (LFP) vs. Spikes
Simulate 150 neurons to see how synchronized postsynaptic potentials (LFPs) create macro-signals that drive astrocytic signaling and metabolic blood flow changes far more strongly than sparse action potentials.
-
Stochastic Leaky Integrate-and-Fire (LIF) Neuron
Examine the cellular electrophysiological threshold, ion pumping energy requirements, and spike generation that necessitate local hemodynamic overcompensation.
-
Ferroquant: Iron & Hemorrhage Susceptibility Contrast
Understand how paramagnetic and diamagnetic iron states (oxyhemoglobin, deoxyhemoglobin, methemoglobin, hemosiderin) alter local magnetic fields and shorten $T_2^*$, with a case study on subdural hematoma aging.
Week 05: fMRI Experimental Design5
-
MRI Artifact Simulator
Introduce deliberate k-space and spatial distortions to inspect Chemical Shift (fat-water frequency displacement), Aliasing / Wrap-around (reduced FOV), and Motion Ghosting (phase-encode modulation) with variable severity.
-
fMRI GLM & Convolution Studio
Connect neural events to the BOLD time series by convolving stimulus boxcars with the canonical double-gamma HRF, observing how metabolic delays shape voxel signals.
-
Interactive BOLD Signal (HRF) Simulator
Trigger a 1-second sensory stimulus to contrast instantaneous electrical neural spiking with the sluggish BOLD Hemodynamic Response Function (HRF) peaking 5–6 seconds later, accompanied by a dynamic cortical activation display.
-
Flash-Lag Psychophysics Experiment
Experience a classic visual perception timing experiment that illustrates how behavioral psychophysics paradigms are parameterized and synchronized with scanner trigger pulses.
-
1D Waveform & Fourier Spectrum Synthesizer
Explore frequency decompositions and harmonic content to understand why scanner drift (<0.01 Hz) and cardiac/respiratory noise are addressed using high-pass filters and physiological regressors.
Week 06: Diffusion Tensor Imaging (DTI)3
-
DTI Tensor & Tractography Explorer
Shape the diffusion tensor by its eigenvalues and watch the six Stejskal-Tanner gradient measurements it would produce, then seed deterministic streamlines into a synthetic corpus-callosum / corticospinal crossing. Tune the FA stopping threshold, turning-angle limit, step size, and Euler vs. Runge-Kutta integration to see tracts terminate at the intersection, and to see them jump bundles and fabricate a connection when the angle limit is relaxed.
-
Interactive Fractional Anisotropy (FA) Simulator
Adjust the FA slider from 0.0 to 0.95+ to observe how water diffusion transitions from an isotropic sphere (free fluid in CSF) to a highly constrained ellipsoid parallel to densely packed, myelinated axonal fiber bundles.
-
129Xe Microstructural Diffusion Primer
Explore how restricted Brownian motion is quantified using Apparent Diffusion Coefficient (ADC) mapping to probe microscopic anatomical barriers.
Week 07: Positron Emission Tomography3
-
Interactive PET Scanner Simulation
An interactive simulation of radiotracer decay, positron range, positron-electron annihilation, antiparallel 511 keV gamma photons, coincidence timing windows in the detector ring, and real-time Line of Response (LOR) reconstruction.
-
X-Ray Water Radiolysis Simulator
Explore photoelectric absorption, Compton scattering, and radical generation during high-energy photon interactions in biological tissue.
-
PET Modality Card Game
Assemble complete hands connecting cyclotrons, radiotracers ($^{18}\text{F}$-FDG, $^{15}\text{O}$, $^{11}\text{C}$-PiB), annihilation coincidence detection, and neurodegenerative applications.
Week 08: Electroencephalography (EEG)4
-
Local Field Potentials (LFP) vs. Spikes
Simulate 150 neurons to see how synchronized postsynaptic potentials (LFPs) create macro-signals that drive astrocytic signaling and metabolic blood flow changes far more strongly than sparse action potentials.
-
Interactive Multi-Channel EEG & Artifact Simulator
Switch between canonical brainwave bands (Delta, Theta, Alpha, Beta, Gamma) across Frontal (Fp1), Central (Cz), and Occipital (O1) channels. Test realistic artifact injection buttons for Eye Blinks (EOG) and Jaw Clenching (EMG).
-
Hodgkin-Huxley Action Potential Simulator
Investigate the voltage-gated $Na^+$ and $K^+$ channel dynamics that govern neuronal excitability and establish the membrane potentials measured by electrophysiological tools.
-
EEG Modality Card Game
Test your mastery of the International 10-20 electrode system, frequency bands, differential amplifiers, and clinical neurology applications.
Week 09: Magnetoencephalography (MEG)3
-
Interactive SQUID Magnetometer vs. Gradiometer Simulator
Experience why gradiometer configurations (two opposing coils) are critical for measuring femtotesla neural signals: observe how uniform ambient magnetic noise is subtracted out while near-field cortical dipole signals are preserved.
-
Vector Field & Curl Explorer
Visualize vector fields and rotational curl ($\nabla \times \vec{B}$), reinforcing the right-hand rule and magnetic field lines generated by primary intracellular dendritic currents.
-
MEG Modality Card Game
Review superconducting quantum interference devices (SQUIDs), helium cryogenics, magnetically shielded rooms, and presurgical language mapping.
Week 10: Functional NIRS (fNIRS)2
-
fNIRS Modified Beer–Lambert Unmixer
Work through the full optical chain: pick two laser wavelengths against the measured HbO2 and HHb extinction spectra, build the Modified Beer-Lambert matrix from the source-detector separation and differential pathlength factors, then push a simulated hyperemic response forward into two attenuation traces and solve the 2x2 system back to concentrations. Choosing both wavelengths on the same side of the isosbestic point makes the matrix ill-conditioned and reproduces the classic HbO2/HHb crosstalk artifact.
-
Interactive fNIRS 'Banana Path' & Hemodynamic Simulator
Watch animated photons diffuse along the characteristic curved 'banana path' between emitter and detector optodes. Trigger cortical stimulation to observe concurrent tracking of oxygenated hemoglobin ($\text{HbO}$) surge and deoxygenated hemoglobin ($\text{HbR}$) decrease.
Week 11: Magnetic Resonance Spectroscopy3
-
Free Induction Decay (FID) & Spin Relaxation
Directly connects the 3D time evolution of precessing and dephasing proton moments to the voltage signal induced in an RF receiver coil via Faraday's Law. Features continuous longitudinal memory across pulses.
-
Interactive MRS Analysis Pipeline & Spectrum Simulator
A complete in-browser spectroscopy workstation. Adjust coil thermal noise, toggle the broad macromolecule baseline, apply a 10,000:1 water suppression filter, tune exponential apodization/line broadening (SNR vs. resolution), test zero-filling, and apply zero- and first-order phase corrections.
-
Hyperpolarized & Multinuclear MRS Primer Hub
Explore advanced spectroscopy protocols including dissolved-phase hyperpolarized Xenon-129 (129xe_dissolved.html), Carbon-13 metabolic flux (13c_liver.html), and jMRUI software workflows (jmrui.html).
Week 12: Multi-modal Integration3
-
Interactive BOLD Signal (HRF) Simulator
Trigger a 1-second sensory stimulus to contrast instantaneous electrical neural spiking with the sluggish BOLD Hemodynamic Response Function (HRF) peaking 5–6 seconds later, accompanied by a dynamic cortical activation display.
-
Kalman Filter Sensor Fusion Simulator
Tune process noise $Q$ versus measurement noise $R$ to understand how state-space filters combine noisy multi-sensor streams into an optimal hidden state estimate.
-
NBL 425 Modality Game Center
Play through all four modality games (MRI, PET, EEG, MEG) to synthesize physical principles, hardware components, and clinical strengths across modalities.
Week 13: Emerging Modalities3
-
Interactive SQUID Magnetometer vs. Gradiometer Simulator
Experience why gradiometer configurations (two opposing coils) are critical for measuring femtotesla neural signals: observe how uniform ambient magnetic noise is subtracted out while near-field cortical dipole signals are preserved.
-
Self-Organized Criticality & Scale-Free Dynamics
Simulate sandpile avalanche distributions and power-law scaling ($1/f$ noise) to examine modern theories of scale-free brain network organization.
-
Hyperpolarized 129Xe Gas Imaging Primer
Explore optical pumping with rubidium vapor to hyperpolarize noble gas nuclei, producing NMR signal enhancements of >100,000-fold that overcome thermal Boltzmann limits.
Week 14: Future & Final Projects3
-
Interactive Spike Sorting (MUA to SUA)
Experiment with unsupervised K-Means clustering in waveform feature space (amplitude vs. width) to isolate single units from multi-unit recordings, illustrating algorithmic classification in neuroscience.
-
Neuroimaging Dichotomous Key
Step through an interactive dichotomous key to differentiate neuroimaging modalities (CT, SPECT, PET, DSA, EEG, MEG, fMRI, structural MRI, fNIRS, and TCD) based on ionizing vs. non-ionizing radiation, tracers, electromagnetic sensors, and physical contrasts.
-
NBL 425 Modality Game Center
Play through all four modality games (MRI, PET, EEG, MEG) to synthesize physical principles, hardware components, and clinical strengths across modalities.
Simulators31
-
1D Waveform & Fourier Spectrum Synthesizer
Explore frequency decompositions and harmonic content to understand why scanner drift (<0.01 Hz) and cardiac/respiratory noise are addressed using high-pass filters and physiological regressors.
-
3D NMR Relaxation & Proton Dynamics
Explore Bloch equation proton spin dynamics in 3D. Manipulate static field strength ($B_0$), $T_1$ recovery, and $T_2$ decay in real-time. Trigger 90° and 180° RF excitation pulses to watch nutation, precession, and magnetization vector evolution.
-
DTI Tensor & Tractography Explorer
Shape the diffusion tensor by its eigenvalues and watch the six Stejskal-Tanner gradient measurements it would produce, then seed deterministic streamlines into a synthetic corpus-callosum / corticospinal crossing. Tune the FA stopping threshold, turning-angle limit, step size, and Euler vs. Runge-Kutta integration to see tracts terminate at the intersection, and to see them jump bundles and fabricate a connection when the angle limit is relaxed.
-
EPI Geometric Distortion & Susceptibility Dropout
Examine macroscopic magnetic susceptibility gradients at air-tissue interfaces (paranasal sinuses) that cause phase-encoding distortion and intra-voxel dephasing signal blackout.
-
Flash-Lag Psychophysics Experiment
Experience a classic visual perception timing experiment that illustrates how behavioral psychophysics paradigms are parameterized and synchronized with scanner trigger pulses.
-
fMRI GLM & Convolution Studio
Connect neural events to the BOLD time series by convolving stimulus boxcars with the canonical double-gamma HRF, observing how metabolic delays shape voxel signals.
-
fNIRS Modified Beer–Lambert Unmixer
Work through the full optical chain: pick two laser wavelengths against the measured HbO2 and HHb extinction spectra, build the Modified Beer-Lambert matrix from the source-detector separation and differential pathlength factors, then push a simulated hyperemic response forward into two attenuation traces and solve the 2x2 system back to concentrations. Choosing both wavelengths on the same side of the isosbestic point makes the matrix ill-conditioned and reproduces the classic HbO2/HHb crosstalk artifact.
-
Free Induction Decay (FID) & Spin Relaxation
Directly connects the 3D time evolution of precessing and dephasing proton moments to the voltage signal induced in an RF receiver coil via Faraday's Law. Features continuous longitudinal memory across pulses.
-
Gradient Encoding Visualizer
Observe how linear magnetic field gradients make precession frequencies position-dependent, demonstrating slice selection (Gz), phase encoding (Gy), and frequency encoding readout (Gx).
-
Hodgkin-Huxley Action Potential Simulator
Investigate the voltage-gated $Na^+$ and $K^+$ channel dynamics that govern neuronal excitability and establish the membrane potentials measured by electrophysiological tools.
-
Interactive 2D FFT & K-Space Simulator
Draw spatial patterns or test presets (sine gratings, checkerboards, Gaussian blobs, edge filters) to see the instantaneous 2D Fourier transform magnitude spectrum with DC centering and log scaling.
-
Interactive BOLD Signal (HRF) Simulator
Trigger a 1-second sensory stimulus to contrast instantaneous electrical neural spiking with the sluggish BOLD Hemodynamic Response Function (HRF) peaking 5–6 seconds later, accompanied by a dynamic cortical activation display.
-
Interactive fNIRS 'Banana Path' & Hemodynamic Simulator
Watch animated photons diffuse along the characteristic curved 'banana path' between emitter and detector optodes. Trigger cortical stimulation to observe concurrent tracking of oxygenated hemoglobin ($\text{HbO}$) surge and deoxygenated hemoglobin ($\text{HbR}$) decrease.
-
Interactive Fractional Anisotropy (FA) Simulator
Adjust the FA slider from 0.0 to 0.95+ to observe how water diffusion transitions from an isotropic sphere (free fluid in CSF) to a highly constrained ellipsoid parallel to densely packed, myelinated axonal fiber bundles.
-
Interactive MRS Analysis Pipeline & Spectrum Simulator
A complete in-browser spectroscopy workstation. Adjust coil thermal noise, toggle the broad macromolecule baseline, apply a 10,000:1 water suppression filter, tune exponential apodization/line broadening (SNR vs. resolution), test zero-filling, and apply zero- and first-order phase corrections.
-
Interactive Multi-Channel EEG & Artifact Simulator
Switch between canonical brainwave bands (Delta, Theta, Alpha, Beta, Gamma) across Frontal (Fp1), Central (Cz), and Occipital (O1) channels. Test realistic artifact injection buttons for Eye Blinks (EOG) and Jaw Clenching (EMG).
-
Interactive PET Scanner Simulation
An interactive simulation of radiotracer decay, positron range, positron-electron annihilation, antiparallel 511 keV gamma photons, coincidence timing windows in the detector ring, and real-time Line of Response (LOR) reconstruction.
-
Interactive Spike Sorting (MUA to SUA)
Experiment with unsupervised K-Means clustering in waveform feature space (amplitude vs. width) to isolate single units from multi-unit recordings, illustrating algorithmic classification in neuroscience.
-
Interactive SQUID Magnetometer vs. Gradiometer Simulator
Experience why gradiometer configurations (two opposing coils) are critical for measuring femtotesla neural signals: observe how uniform ambient magnetic noise is subtracted out while near-field cortical dipole signals are preserved.
-
k-space Explorer
Vary the fraction of k-space kept to see how central k-space governs coarse contrast while peripheral k-space yields sharp edges, demonstrating Gibbs / truncation ringing.
-
Kalman Filter Sensor Fusion Simulator
Tune process noise $Q$ versus measurement noise $R$ to understand how state-space filters combine noisy multi-sensor streams into an optimal hidden state estimate.
-
Local Field Potentials (LFP) vs. Spikes
Simulate 150 neurons to see how synchronized postsynaptic potentials (LFPs) create macro-signals that drive astrocytic signaling and metabolic blood flow changes far more strongly than sparse action potentials.
-
MRI Artifact Simulator
Introduce deliberate k-space and spatial distortions to inspect Chemical Shift (fat-water frequency displacement), Aliasing / Wrap-around (reduced FOV), and Motion Ghosting (phase-encode modulation) with variable severity.
-
Pulse Sequence Timing Diagram
A dynamic pulse sequence diagram. Adjust TE to see the 180° refocusing pulse and echo move together; adjust TR to visualize scanner repetition intervals and phase-encode step increments.
-
Self-Organized Criticality & Scale-Free Dynamics
Simulate sandpile avalanche distributions and power-law scaling ($1/f$ noise) to examine modern theories of scale-free brain network organization.
-
Spin Echo Dephasing & Rephasing I & II
Watch an 8x8 array of magnetic moments dephase due to microscopic field inhomogeneities ($T_2^*$), then apply a 180° RF pulse to reverse their relative phase evolution and observe spin echo refocusing.
-
Spinning Vector Sum Simulator
Adjust rotation frequencies and vector amplitudes to see how multiple precessing magnetic moments combine constructively or destructively to produce the net detected MR signal.
-
Stochastic Leaky Integrate-and-Fire (LIF) Neuron
Examine the cellular electrophysiological threshold, ion pumping energy requirements, and spike generation that necessitate local hemodynamic overcompensation.
-
TR/TE Contrast Explorer
Manipulate TR and TE sliders to see real-time spin-echo signal calculations across four tissue types (White Matter, Gray Matter, CSF, and Fat), dynamically identifying T1-weighted, T2-weighted, and PD-weighted regimes.
-
Vector Field & Curl Explorer
Visualize vector fields and rotational curl ($\nabla \times \vec{B}$), reinforcing the right-hand rule and magnetic field lines generated by primary intracellular dendritic currents.
-
X-Ray Water Radiolysis Simulator
Explore photoelectric absorption, Compton scattering, and radical generation during high-energy photon interactions in biological tissue.
Tool & Primers8
-
129Xe Microstructural Diffusion Primer
Explore how restricted Brownian motion is quantified using Apparent Diffusion Coefficient (ADC) mapping to probe microscopic anatomical barriers.
-
Diagnostic Test & Confusion Matrix Calculator
Manipulate sensitivity, specificity, and disease prevalence to visualize true/false positives and confusion matrices, demonstrating how pre-test probability impacts clinical imaging biomarkers.
-
Ernst Angle Calculator
Calculate the optimal excitation flip angle $\alpha_E = \arccos(e^{-TR/T_1})$ to maximize steady-state signal amplitude for gradient echo sequences at short repetition times.
-
Ferroquant: Iron & Hemorrhage Susceptibility Contrast
Understand how paramagnetic and diamagnetic iron states (oxyhemoglobin, deoxyhemoglobin, methemoglobin, hemosiderin) alter local magnetic fields and shorten $T_2^*$, with a case study on subdural hematoma aging.
-
Hyperpolarized & Multinuclear MRS Primer Hub
Explore advanced spectroscopy protocols including dissolved-phase hyperpolarized Xenon-129 (129xe_dissolved.html), Carbon-13 metabolic flux (13c_liver.html), and jMRUI software workflows (jmrui.html).
-
Hyperpolarized 129Xe Gas Imaging Primer
Explore optical pumping with rubidium vapor to hyperpolarize noble gas nuclei, producing NMR signal enhancements of >100,000-fold that overcome thermal Boltzmann limits.
-
MRI Safety Course & Force Simulator
Examine the spatial fringe field of superconducting magnets with an interactive magnetic attraction force slider ($F \propto B^2$), review projectile safety, and complete the MRI Safety Certification Quiz.
-
Neuroimaging Perspectives: Clinical vs. Research
Explore how clinical radiologists and neuroscientists interpret brain scans differently: qualitative PACS workstations and single-patient pathology vs. quantitative group-level statistics and automated volumetric analysis in research.
Assessments2
-
Diagnostic Incoming Self-Assessment Quiz
A quick pre-assessment quiz covering core neuroimaging modalities, signal sources, and spatial/temporal tradeoffs to evaluate your baseline knowledge.
-
Neuroimaging Dichotomous Key
Step through an interactive dichotomous key to differentiate neuroimaging modalities (CT, SPECT, PET, DSA, EEG, MEG, fMRI, structural MRI, fNIRS, and TCD) based on ionizing vs. non-ionizing radiation, tracers, electromagnetic sensors, and physical contrasts.
Games5
-
EEG Modality Card Game
Test your mastery of the International 10-20 electrode system, frequency bands, differential amplifiers, and clinical neurology applications.
-
MEG Modality Card Game
Review superconducting quantum interference devices (SQUIDs), helium cryogenics, magnetically shielded rooms, and presurgical language mapping.
-
MRI Modality Card Game
Reinforce knowledge of MRI magnet types, tissue contrasts (T1, T2, FLAIR, DWI), relaxation physics, and clinical neuro applications.
-
NBL 425 Modality Game Center
Play through all four modality games (MRI, PET, EEG, MEG) to synthesize physical principles, hardware components, and clinical strengths across modalities.
-
PET Modality Card Game
Assemble complete hands connecting cyclotrons, radiotracers ($^{18}\text{F}$-FDG, $^{15}\text{O}$, $^{11}\text{C}$-PiB), annihilation coincidence detection, and neurodegenerative applications.
Relevant but not yet on a week page12
These live on the site and bear on the course, but no week page links them. Worth either promoting onto the week they belong to or leaving here as optional depth. The week tag on each is my suggestion, not an existing link.
-
Spin Echo Dephasing & Rephasing II (Isochromat Grid)
The grid version of the dephasing and rephasing demo. Week 03 names "I & II" in its listing but links only the first.
-
Magnetic Domain Simulator
Domains aligning and reorienting under an applied field, behind the shim and fringe-field behaviour of a superconducting magnet.
-
MRI Safety Certification Quiz
The safety quiz on its own, separate from the course module it is embedded in.
-
Biophysical Contrast Simulation Sandbox
Sweeps tissue parameters across several contrast mechanisms in one place. Built for IDNE 701, but the physics is the same as Week 03.
-
A Periodic Chart for Magnetic Resonance
Every NMR-active nucleus with its spin, gyromagnetic ratio, and natural abundance, which is the table you actually need when planning a multinuclear study.
-
Vector Field Explorer
A second take on field visualisation alongside the curl plot used in Week 09.
-
Fourier Analysis by Epicycles
Builds an arbitrary waveform out of rotating phasors, which is the same idea as filling k-space one spatial frequency at a time. From the mathematics series under garrity/.
-
Cellular Automata: Game of Life
Local rules producing global structure. Sits with the self-organised criticality material in Week 13.
-
Cellular Automata on Directed Graphs
Automata on an arbitrary graph rather than a grid, which is closer to how network models of cortex behave.
-
Flocking and Collective Dynamics
Three local rules producing coherent group motion, another view of the emergence theme in Week 13.
-
Hebbian Learning Demo
Weight change driven by correlated activity, companion to the leaky integrate-and-fire neuron in Week 04.
-
NeuroSweep: Neural Array Sweep
Minesweeper reskinned onto an electrode array. Inference from sparse local evidence, which is a fair caricature of source localisation.